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MicroRNA Expression Profiling, Target Identification, and Validation in Chondrocytes

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Chondrocytes

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2245))

Abstract

MicroRNAs (miRNAs) are a class of noncoding small RNAs, which play a critical role in various biological processes including musculoskeletal formation and arthritis pathogenesis via regulating target gene expressions, raising the potentially substantial effects on gene expression networks. Over 2000 miRNAs are encoded in the human genome and a single miRNA potentially targets hundreds of genes. To examine the expression and function of miRNAs in chondrocytes and arthritis pathogenesis, we describe the protocols for the current miRNA related experiments including miRNA expression profiling by (1) Next Generation Sequencing and by TaqMan Array system, (2) miRNA target prediction by TargetScan, (3) miRNA target screening by cell-based reporter library assay, and (4) miRNA and its target interaction by HITS-CLIP (high-throughput sequencing of RNAs isolated by cross-linking immunoprecipitation) in cartilage and chondrocyte research.

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Author information

Authors and Affiliations

  1. Department of Systems BioMedicine, Tokyo Medical and Dental University (TMDU), Tokyo, Japan

    Tomoki Chiba, Ryota Kurimoto, Takahide Matsushima, Yoshiaki Ito & Hiroshi Asahara

  2. Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA, USA

    Ryo Nakamichi, Martin Lotz & Hiroshi Asahara

Authors
  1. Tomoki Chiba
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  2. Ryota Kurimoto
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  3. Takahide Matsushima
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  4. Yoshiaki Ito
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  5. Ryo Nakamichi
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  6. Martin Lotz
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  7. Hiroshi Asahara
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Corresponding author

Correspondence to Hiroshi Asahara .

Editor information

Editors and Affiliations

  1. Department of Anatomy and Neurobiology, Northeast Ohio Medical University, Rootstown, OH, USA

    Tariq M. Haqqi

  2. Department of Surgery, The Children's Hospital of Philadelphia, Philadelphia, PA, USA

    Véronique Lefebvre

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Chiba, T. et al. (2021). MicroRNA Expression Profiling, Target Identification, and Validation in Chondrocytes. In: Haqqi, T.M., Lefebvre, V. (eds) Chondrocytes. Methods in Molecular Biology, vol 2245. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1119-7_11

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  • DOI: https://doi.org/10.1007/978-1-0716-1119-7_11

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-1118-0

  • Online ISBN: 978-1-0716-1119-7

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